Variant report

Variant	rs56281742
Chromosome Location	chr19:38160383-38160384
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10153500	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10424047	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11878261	0.81[EUR][1000 genomes]
rs11879149	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11880056	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11880604	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11883255	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2927744	0.81[AFR][1000 genomes]
rs34206817	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34743484	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3810359	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs45505797	0.83[EUR][1000 genomes]
rs4802069	0.80[AFR][1000 genomes]
rs56075341	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56264690	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57504517	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57725815	0.93[EUR][1000 genomes]
rs57867853	1.00[EUR][1000 genomes]
rs59966837	1.00[EUR][1000 genomes]
rs60686304	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108260	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62108262	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108264	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62108289	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108290	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108292	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108293	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108297	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108302	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62108344	0.89[AFR][1000 genomes]
rs62108348	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62108350	0.80[ASN][1000 genomes]
rs62108354	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62110178	1.00[EUR][1000 genomes]
rs62110183	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62110185	0.93[EUR][1000 genomes]
rs62110186	0.93[EUR][1000 genomes]
rs62110187	0.84[EUR][1000 genomes]
rs62110188	0.81[EUR][1000 genomes]
rs62111488	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62111490	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7245981	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7247175	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7258992	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7259029	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7259717	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73930999	0.83[EUR][1000 genomes]
rs73932929	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73932955	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8101991	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8102189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8104124	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8104747	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8108261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38152000-38169000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr19:38156600-38165200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr19:38156600-38165200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr19:38158800-38161000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr19:38159000-38161400	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
6	chr19:38159000-38161800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr19:38159000-38162600	ZNF genes & repeats	Liver	Liver
8	chr19:38159200-38160400	ZNF genes & repeats	A549	lung
9	chr19:38159200-38160600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
10	chr19:38159200-38161000	ZNF genes & repeats	Brain Hippocampus Middle	brain
11	chr19:38159200-38161000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
12	chr19:38159200-38161200	ZNF genes & repeats	Colon Smooth Muscle	Colon
13	chr19:38159200-38161200	ZNF genes & repeats	Fetal Lung	lung
14	chr19:38159200-38161400	ZNF genes & repeats	Brain Anterior Caudate	brain
15	chr19:38159200-38165200	ZNF genes & repeats	Adipose Nuclei	Adipose
16	chr19:38159400-38160400	ZNF genes & repeats	Fetal Brain Female	brain
17	chr19:38159400-38161000	ZNF genes & repeats	Brain Substantia Nigra	brain
18	chr19:38159400-38161200	ZNF genes & repeats	Primary T killer memory cells from peripheral blood	blood
19	chr19:38159400-38161200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
20	chr19:38159400-38161800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
21	chr19:38160000-38161000	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
22	chr19:38160000-38161200	ZNF genes & repeats	Dnd41	blood

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